To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("OncoSimulR")

In most cases, you don't need to download the package archive at all.

OncoSimulR

   

This package is for version 3.1 of Bioconductor; for the stable, up-to-date release version, see OncoSimulR.

Simulation of cancer progresion with order restrictions

Bioconductor version: 3.1

Functions for simulating and plotting cancer progression data, including drivers and passengers, and allowing for order restrictions. Simulations use continuous-time models (based on Bozic et al., 2010 and McFarland et al., 2013) and fitness functions account for possible restrictions in the order of accumulation of mutations.

Author: Ramon Diaz-Uriarte.

Maintainer: Ramon Diaz-Uriarte <rdiaz02 at gmail.com>

Citation (from within R, enter citation("OncoSimulR")):

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("OncoSimulR")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("OncoSimulR")

 

PDF R Script OncoSimulR Overview
PDF   Reference Manual
Text   NEWS

Details

biocViews BiologicalQuestion, Software, SomaticMutation
Version 1.2.0
In Bioconductor since BioC 3.0 (R-3.1) (1.5 years)
License GPL (>= 3)
Depends R (>= 3.1.0)
Imports Rcpp (>= 0.11.1), parallel, data.table, graph, Rgraphviz
LinkingTo Rcpp
Suggests BiocStyle, knitr, Oncotree
SystemRequirements C++11
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Package Source OncoSimulR_1.2.0.tar.gz
Windows Binary OncoSimulR_1.2.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)
Mac OS X 10.9 (Mavericks) OncoSimulR_1.2.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/OncoSimulR/tree/release-3.1
Package Short Url http://bioconductor.org/packages/OncoSimulR/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations:

Fred Hutchinson Cancer Research Center